sambamba (0.4.7) unstable, urgency=low
  * use random subdirectories for temporary files in both sort and markdup utilities 
    (allows to run multiple processes in parallel)
  * fixed bug in slice tool: when slicing last reference, unmapped reads were written too
  * fixed a bug in uncompressed BAM output
  * fixed a bug in intersecting with BED

 -- Artem Tarasov <lomereiter@gmail.com>  Fri, 20 Jun 2014 16:27:19 +0400

sambamba (0.4.6) unstable, urgency=low
  * fixed a bug in duplicate marking tool
  * fixed handling empty BAM files in sort tool

 -- Artem Tarasov <lomereiter@gmail.com>  Mon, 28 Apr 2014 23:47:20 +0400

sambamba (0.4.5) unstable, urgency=low

  * new -L option in the 'view' tool for intersecting a file with BED
  * preventing incidental file overwrites by checking output filename
  * slightly improved performance of converting to SAM/JSON

 -- Artem Tarasov <lomereiter@gmail.com>  Tue, 04 Feb 2014 10:57:21 +0400

sambamba (0.4.4) unstable, urgency=low

  * fixed sorting by name which didn't work in recent releases

 -- Artem Tarasov <lomereiter@gmail.com>  Wed, 18 Dec 2013 20:38:39 +0400

sambamba (0.4.3) unstable, urgency=low

  * improved sorting performance
  * bug fixed in the 'sort' tool
  * 'view' supports '*' region, '--unmapped' option removed

 -- Artem Tarasov <lomereiter@gmail.com>  Sun, 01 Dec 2013 17:11:42 +0400

sambamba (0.4.2) unstable; urgency=low
  
  * new option '--unmapped' in view tool (for indexed BAMs)
  * fixed an epic bug in region queries introduced in 0.4.1

 -- Artem Tarasov <lomereiter@gmail.com>  Thu, 14 Nov 2013 02:45:58 +0400

sambamba (0.4.1) unstable, urgency=low

  * integrated new BAM reader (better scaling on multicore)
  * `index` tool now collects optional statistics (for idxstats)
  * fixed a bug with outputting SAM when requested JSON

 -- Artem Tarasov <lomereiter@gmail.com>  Wed, 30 Oct 2013 00:42:33 +0400

sambamba (0.4.0) unstable; urgency=low

  * added tool for marking duplicates, which uses Picard criteria

 -- Artem Tarasov <lomereiter@gmail.com>  Wed, 02 Oct 2013 23:07:14 +0400

sambamba (0.3.3) unstable; urgency=low

  * reduced buffer size for uncompressed BAM output
    so that it is less than pipe buffer size
  * added subsampling option to sambamba view

 -- Artem Tarasov <lomereiter@gmail.com>  Sat, 13 Jul 2013 16:27:25 +0400

sambamba (0.3.2) unstable; urgency=low

  * fixed bug in flagstat parameter parsing
  * consistent naming for number of threads in CLI

 -- Artem Tarasov <lomereiter@gmail.com>  Tue, 16 Apr 2013 09:23:35 +0400

sambamba (0.3.1) unstable; urgency=low

  * numerous bugfixes
  * now requires at least v2.061 of D compiler

 -- Artem Tarasov <lomereiter@gmail.com>  Sun, 11 Mar 2013 01:03:17 +0400

sambamba (0.3.0) unstable; urgency=low

  * new command line tool -- sambamba-slice
  * several minor bugfixes
  * compiles with LDC2

 -- Artem Tarasov <lomereiter@gmail.com>  Wed, 12 Dec 2012 22:57:12 +0400

sambamba (0.2.9) unstable; urgency=low

  * random access speedup

 -- Artem Tarasov <lomereiter@gmail.com>  Sun, 08 Oct 2012 01:39:26 +0400

sambamba (0.2.8) unstable; urgency=low

  * fix segfault on opening unexistent file
  * fix random-access for files >2GB

 -- Artem Tarasov <lomereiter@gmail.com>  Wed, 26 Sep 2012 17:17:03 +0400

sambamba (0.2.7) unstable; urgency=low

  * fix a stupid bug related to determining end of file
  * add support for BAM files of size > 2GB (workaround for Phobos bug)

 -- Artem Tarasov <lomereiter@gmail.com>  Sun, 16 Sep 2012 14:45:09 +0400

sambamba (0.2.6) unstable; urgency=low

  * add output in MessagePack format to sambamba-view

 -- Artem Tarasov <lomereiter@gmail.com>  Sun, 19 Aug 2012 19:42:48 +0400

sambamba (0.2.5) unstable; urgency=low

  * fix bug in indexing (worked correctly for < 73Mbp long references)

 -- Artem Tarasov <lomereiter@gmail.com>  Sat, 18 Aug 2012 20:02:12 +0400

sambamba (0.2.4) unstable; urgency=low

  * fix bug about outputting header to a file in SAM/JSON output
  * consistent use of stderr for error messages and usage information

 -- Artem Tarasov <lomereiter@gmail.com>  Tue, 14 Aug 2012 21:31:52 +0400

sambamba (0.2.3) unstable; urgency=low

  * fix bug in BAM output
  * support for non-seekable streams (pipes, stdin/stdout)

 -- Artem Tarasov <lomereiter@gmail.com>  Sat, 11 Aug 2012 16:20:44 +0400

sambamba (0.2.1) unstable; urgency=low

  * Initial release

 -- Artem Tarasov <lomereiter@gmail.com>  Tue,  7 Aug 2012 17:51:11 +0400
